PXD030312 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Visualization of early ribosome assembly in action |
Description | Ribosomes, macromolecular machines producing a cell´s protein content, are formed from their RNA and protein components in a dynamic process referred to as ribosome assembly. While ribosome assembly in the cell starts with the successive synthesis of ribosomal RNA (rRNA) by the RNA polymerase holoenzyme, and requires numerous assembly factors, (Kaczanowska & Ryden-Aulin, 2007; Shajani et al., 2011), the process can be accomplished in vitro, using purified ribosomal components and scalable reaction conditions (Nierhaus & Dohme, 1974; Traub & Nomura, 1968). To obtain structural and conceptual insights in the early phase of the process, we performed the in vitro assembly reaction of the bacterial 50S subunit as a time course reaction, analyzed samples by sucrose density gradient ultracentrifugation, activity assay, quantitative mass spectrometry (qMS) and cryo-electron microscopy (cryo-EM). Our structural analysis reveals that early 50 assembly initiates with 23S rRNA domain I and occurs in a domain-wise fashion, while late 50S assembly proceeds incrementally. Notably, in both phases parallel pathways are utilized. Furthermore, we find that both ribosomal proteins and folded rRNA helices, occupying surface exposed regions on pre-50S particles, induce, or stabilize rRNA folds within adjacent regions, thereby creating cooperativity. Our study provides new insights into fundamental principles governing ribosome assembly. |
HostingRepository | PRIDE |
AnnounceDate | 2022-09-05 |
AnnouncementXML | Submission_2022-09-05_04:20:27.770.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Carlos Vieira |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; |
ModificationList | carbamoylated residue |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-12-11 15:31:19 | ID requested | |
⏵ 1 | 2022-09-05 04:20:28 | announced | |
2 | 2024-10-22 06:53:28 | announced | 2024-10-22: Updated project metadata. |
Publication List
Nikolay R, Hilal T, Schmidt S, Qin B, Schwefel D, Vieira-Vieira CH, Mielke T, B, ü, rger J, Loerke J, Amikura K, Fl, ü, gel T, Ueda T, Selbach M, Deuerling E, Spahn CMT, Snapshots of native pre-50S ribosomes reveal a biogenesis factor network and evolutionary specialization. Mol Cell, 81(6):1200-1215.e9(2021) [pubmed] |
Keyword List
submitter keyword: Ribosome assembly |
Contact List
Matthias Selbach |
contact affiliation | Proteome Dynamics, Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC), Robert-Rössle-Str. 10, 13125 Berlin, Germany Charité -Universitätsmedizin Berlin, 10117 Berlin, Germany |
contact email | matthias.selbach@mdc-berlin.de |
lab head | |
Carlos Vieira |
contact affiliation | Max-Delbrück-Centrum für Molekulare Medizin in der Helmholtz-Gemeinschaft |
contact email | carlos.vieira@mdc-berlin.de |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD030312
- Label: PRIDE project
- Name: Visualization of early ribosome assembly in action